Sodium in PDB 5sv5: 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis.

All present enzymatic activity of 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis.:
3.4.24.3;

The structure of 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis., PDB code: 5sv5 was solved by G.Minasov, L.Shuvalova, O.Kiryukhina, I.Dubrovska, S.Shatsman, K.Kwon, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases(Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.82 / 1.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	33.533, 37.764, 42.810, 90.00, 106.95, 90.00
R / Rfree (%)	13.3 / 14.8

The binding sites of Sodium atom in the 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis. (pdb code 5sv5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis., PDB code: 5sv5:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1001 b:11.7 occ:1.00 O A:SER879 2.3 9.4 1.0 OD2 A:ASP884 2.3 13.1 1.0 O A:HOH1178 2.4 19.0 1.0 OD1 A:ASP887 2.4 11.9 1.0 O A:HOH1209 2.4 29.9 1.0 OD2 A:ASP887 2.7 11.0 1.0 CG A:ASP887 2.9 9.7 1.0 CG A:ASP884 3.3 11.1 1.0 O A:HOH1216 3.4 18.9 0.5 C A:SER879 3.5 8.5 1.0 NA A:NA1003 3.5 12.1 1.0 OD1 A:ASP884 3.7 15.1 1.0 O A:HOH1154 3.8 12.0 1.0 N A:SER879 3.9 8.5 1.0 O A:HOH1234 4.2 24.0 0.5 O A:HOH1201 4.3 27.4 1.0 CA A:SER879 4.3 8.9 1.0 CD2 A:LEU880 4.3 9.7 1.0 OG A:SER879 4.3 12.6 1.0 CB A:ASP887 4.4 9.5 1.0 N A:LEU880 4.5 8.2 1.0 O A:HOH1199 4.6 15.8 0.5 CB A:ASP884 4.6 10.6 1.0 CA A:LEU880 4.8 8.6 1.0 CB A:SER879 5.0 11.0 1.0

Sodium binding site 2 out of 3 in the 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1002 b:17.6 occ:0.70 OD1 A:ASN933 2.4 13.6 1.0 O A:HOH1174 2.4 18.7 1.0 O A:HOH1249 2.4 49.0 1.0 O A:HOH1228 2.4 29.5 1.0 O A:HOH1208 2.5 25.0 1.0 O A:HOH1227 2.7 25.3 1.0 CG A:ASN933 3.5 11.8 1.0 ND1 A:HIS934 3.9 14.3 1.0 N A:ASN933 4.1 10.4 1.0 ND2 A:ASN933 4.2 13.7 1.0 O A:HOH1197 4.2 30.6 1.0 CE1 A:HIS934 4.2 16.3 1.0 CB A:ASN933 4.5 11.6 1.0 O A:ASN931 4.8 9.4 1.0 CA A:ASN933 4.8 10.5 1.0 CA A:GLY932 4.9 11.1 1.0

Sodium binding site 3 out of 3 in the 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1003 b:12.1 occ:1.00 OD1 A:ASP884 2.3 15.1 1.0 OD1 A:ASP887 2.3 11.9 1.0 O A:THR886 2.4 9.8 1.0 OE2 A:GLU865 2.4 19.5 0.5 O A:HOH1203 2.4 50.2 0.5 O A:HOH1216 2.4 18.9 0.5 CD A:GLU865 3.1 19.6 0.5 CG A:ASP884 3.2 11.1 1.0 C A:THR886 3.3 8.8 1.0 OD2 A:ASP884 3.4 13.1 1.0 CG A:ASP887 3.5 9.7 1.0 OE1 A:GLU865 3.5 20.1 0.5 NA A:NA1001 3.5 11.7 1.0 O A:HOH1102 3.8 25.1 0.5 CA A:ASP887 3.8 8.5 1.0 N A:ASP887 3.9 8.5 1.0 O A:HOH1128 3.9 19.0 1.0 O A:HOH1201 4.1 27.4 1.0 CG A:GLU865 4.1 19.5 0.5 O A:HOH1189 4.2 16.3 0.7 CB A:ASP887 4.2 9.5 1.0 O A:HOH1209 4.3 29.9 1.0 O A:HOH1218 4.3 24.2 0.5 OD2 A:ASP887 4.4 11.0 1.0 O A:HOH1189 4.4 17.6 0.3 N A:THR886 4.5 8.8 1.0 CA A:THR886 4.5 9.1 1.0 CB A:ASP884 4.6 10.6 1.0 CD A:GLU865 4.7 35.2 0.5 OE2 A:GLU865 4.7 35.9 0.5 OE1 A:GLU865 4.7 35.2 0.5

G.Minasov, L.Shuvalova, O.Kiryukhina, I.Dubrovska, S.Shatsman, K.Kwon, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases(Csgid). 1.0 Angstrom Crystal Structure of Pre-Peptidase C-Terminal Domain of Collagenase From Bacillus Anthracis. To Be Published.